RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 018760
(350 letters)
>gnl|CDD|178212 PLN02602, PLN02602, lactate dehydrogenase.
Length = 350
Score = 672 bits (1736), Expect = 0.0
Identities = 291/350 (83%), Positives = 320/350 (91%)
Query: 1 MHKTPSGSSLGPGGLDLTQTFFKPINHAAPPSPTKRHTKISVIGTGNVGMAIAQTILTQD 60
M K+ S SSLGPGGLDL+Q FFKPI++++PPSPT+RHTK+SV+G GNVGMAIAQTILTQD
Sbjct: 1 MKKSSSASSLGPGGLDLSQAFFKPIHNSSPPSPTRRHTKVSVVGVGNVGMAIAQTILTQD 60
Query: 61 FVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILASVDYAVTAGSDLCIVTAGARQIAG 120
+ELALVD DKLRGEMLDLQHAAAFLPRTKILAS DYAVTAGSDLCIVTAGARQI G
Sbjct: 61 LADELALVDVNPDKLRGEMLDLQHAAAFLPRTKILASTDYAVTAGSDLCIVTAGARQIPG 120
Query: 121 ESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVDILTYVAWKLSGLPSNRVIGSGT 180
ESRLNLLQRN++LF+ IIP L KYSPD ILLIV+NPVD+LTYVAWKLSG P+NRVIGSGT
Sbjct: 121 ESRLNLLQRNVALFRKIIPELAKYSPDTILLIVSNPVDVLTYVAWKLSGFPANRVIGSGT 180
Query: 181 NLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWSSISVGGVPILSFLEKQQIAYE 240
NLDSSRFRFL+ADHLDVNAQDVQAYIVGEHGDSSVALWSS+SVGGVP+LSFLEKQQIAYE
Sbjct: 181 NLDSSRFRFLIADHLDVNAQDVQAYIVGEHGDSSVALWSSVSVGGVPVLSFLEKQQIAYE 240
Query: 241 KETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRDQRKIHPVSVLAKGFYGI 300
KETLE IH+ VVDSAYEVI LKGYTSWAIGYS A+L RS++RDQR+IHPVSVLAKGF+GI
Sbjct: 241 KETLEEIHRAVVDSAYEVIKLKGYTSWAIGYSVASLVRSLLRDQRRIHPVSVLAKGFHGI 300
Query: 301 DGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSAKTILEVQSQLGI 350
D GDVFLSLPAQLGR GVLGV N+HL EE+ RLR SAKT+ EVQSQLG+
Sbjct: 301 DEGDVFLSLPAQLGRNGVLGVVNVHLTDEEAERLRKSAKTLWEVQSQLGL 350
>gnl|CDD|133429 cd05293, LDH_1, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed of
eukaryotic LDHs. Vertebrate LDHs are non-allosteric.
This is in contrast to some bacterial LDHs that are
activated by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 312
Score = 485 bits (1251), Expect = e-174
Identities = 174/313 (55%), Positives = 221/313 (70%), Gaps = 1/313 (0%)
Query: 35 KRHTKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKI 94
K K++V+G G VGMA A +IL + +EL LVD DKL+GE +DLQH +AFL KI
Sbjct: 1 KPRNKVTVVGVGQVGMACAISILAKGLADELVLVDVVEDKLKGEAMDLQHGSAFLKNPKI 60
Query: 95 LASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVA 154
A DY+VTA S + IVTAGARQ GESRL+L+QRN+ +FK IIP LVKYSP+ ILL+V+
Sbjct: 61 EADKDYSVTANSKVVIVTAGARQNEGESRLDLVQRNVDIFKGIIPKLVKYSPNAILLVVS 120
Query: 155 NPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSS 214
NPVDI+TYVAWKLSGLP +RVIGSG NLDS+RFR+L+A+ L V V +I+GEHGDSS
Sbjct: 121 NPVDIMTYVAWKLSGLPKHRVIGSGCNLDSARFRYLIAERLGVAPSSVHGWIIGEHGDSS 180
Query: 215 VALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAA 274
V +WS ++V GV + + E + +HK+VVDSAYEVI LKGYTSWAIG S A
Sbjct: 181 VPVWSGVNVAGVRLQDLNPDIGTDKDPEKWKEVHKQVVDSAYEVIKLKGYTSWAIGLSVA 240
Query: 275 NLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRL 334
+L +I+R+ ++H VS L KG +GI +VFLSLP LG G+ V L +EE +L
Sbjct: 241 DLVDAILRNTGRVHSVSTLVKGLHGI-EDEVFLSLPCILGENGITHVIKQPLTEEEQEKL 299
Query: 335 RNSAKTILEVQSQ 347
+ SA T+ EVQ Q
Sbjct: 300 QKSADTLWEVQKQ 312
>gnl|CDD|233566 TIGR01771, L-LDH-NAD, L-lactate dehydrogenase. This model
represents the NAD-dependent L-lactate dehydrogenases
from bacteria and eukaryotes. This enzyme function as as
the final step in anaerobic glycolysis. Although lactate
dehydrogenases have in some cases been mistaken for
malate dehydrogenases due to the similarity of these two
substrates and the apparent ease with which evolution
can toggle these activities, critical residues have been
identified which can discriminate between the two
activities. At the time of the creation of this model no
hits above the trusted cutoff contained critical
residues typical of malate dehydrogenases [Energy
metabolism, Anaerobic, Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 299
Score = 432 bits (1114), Expect = e-153
Identities = 145/302 (48%), Positives = 202/302 (66%), Gaps = 3/302 (0%)
Query: 42 VIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILASVDYA 101
+IG GNVG + A +L Q +E+ L+D DK GE +DLQHAA+FLP K + S DY+
Sbjct: 1 IIGAGNVGSSTAFALLNQGIADEIVLIDINKDKAEGEAMDLQHAASFLPTPKKIRSGDYS 60
Query: 102 VTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVDILT 161
+DL ++TAGA Q GE+RL L+ RN+ + K+I+P +VK D I L+ NPVDILT
Sbjct: 61 DCKDADLVVITAGAPQKPGETRLELVGRNVRIMKSIVPEVVKSGFDGIFLVATNPVDILT 120
Query: 162 YVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWSSI 221
YVAWKLSG P NRVIGSGT LD++R R+LLA+ L V+ Q V AYI+GEHGDS V +WSS
Sbjct: 121 YVAWKLSGFPKNRVIGSGTVLDTARLRYLLAEKLGVDPQSVHAYIIGEHGDSEVPVWSSA 180
Query: 222 SVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSII 281
++GGVP+L +L+ + + + E I KEV D+AYE+I+ KG T + IG + A + +I+
Sbjct: 181 TIGGVPLLDYLKAKGTETDLDLEE-IEKEVRDAAYEIINRKGATYYGIGMAVARIVEAIL 239
Query: 282 RDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSAKTI 341
D+ ++ PVS G YGI DV++ +PA LGR GV + + L+ EE + SA+T+
Sbjct: 240 HDENRVLPVSAYLDGEYGI--KDVYIGVPAVLGRNGVEEIIELPLSDEEKEAFQKSAETL 297
Query: 342 LE 343
+
Sbjct: 298 KK 299
>gnl|CDD|133428 cd05292, LDH_2, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed
predominantly of bacterial LDHs and a few fungal LDHs.
Bacterial LDHs may be non-allosteric or may be activated
by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 308
Score = 402 bits (1036), Expect = e-141
Identities = 150/311 (48%), Positives = 207/311 (66%), Gaps = 3/311 (0%)
Query: 38 TKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILAS 97
K++++G G VG A +L + E+ LVD K GE +DL H F+ +I A
Sbjct: 1 MKVAIVGAGFVGSTTAYALLLRGLASEIVLVDINKAKAEGEAMDLAHGTPFVKPVRIYA- 59
Query: 98 VDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPV 157
DYA G+D+ ++TAGA Q GE+RL+LL+RN+++FK IIP ++KY+PD ILL+V NPV
Sbjct: 60 GDYADCKGADVVVITAGANQKPGETRLDLLKRNVAIFKEIIPQILKYAPDAILLVVTNPV 119
Query: 158 DILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVAL 217
D+LTYVA+KLSGLP NRVIGSGT LD++RFR+LL +HL V+ + V AYI+GEHGDS VA+
Sbjct: 120 DVLTYVAYKLSGLPPNRVIGSGTVLDTARFRYLLGEHLGVDPRSVHAYIIGEHGDSEVAV 179
Query: 218 WSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLA 277
WSS ++GGVP+ F + +++E E I +EV ++AYE+I KG T +AIG + A +
Sbjct: 180 WSSANIGGVPLDEFCKLCGRPFDEEVREEIFEEVRNAAYEIIERKGATYYAIGLALARIV 239
Query: 278 RSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNS 337
+I+RD+ + VS L G YGI DV LSLP +GR GV V L++EE LR S
Sbjct: 240 EAILRDENSVLTVSSLLDGQYGIK--DVALSLPCIVGRSGVERVLPPPLSEEEEEALRAS 297
Query: 338 AKTILEVQSQL 348
A+ + E L
Sbjct: 298 AEVLKEAIESL 308
>gnl|CDD|133418 cd00300, LDH_like, L-lactate dehydrogenase-like enzymes. Members
of this subfamily are tetrameric NAD-dependent
2-hydroxycarboxylate dehydrogenases including LDHs,
L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and
LDH-like malate dehydrogenases (MDH). Dehydrogenases
catalyze the conversion of carbonyl compounds to
alcohols or amino acids. LDHs catalyze the last step of
glycolysis in which pyruvate is converted to L-lactate.
Vertebrate LDHs are non-allosteric, but some bacterial
LDHs are activated by an allosteric effector such as
fructose-1,6-bisphosphate. L-HicDH catalyzes the
conversion of a variety of 2-oxo carboxylic acids with
medium-sized aliphatic or aromatic side chains. MDH is
one of the key enzymes in the citric acid cycle,
facilitating both the conversion of malate to
oxaloacetate and replenishing levels of oxalacetate by
reductive carboxylation of pyruvate. The LDH-like
subfamily is part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 300
Score = 363 bits (933), Expect = e-126
Identities = 148/306 (48%), Positives = 210/306 (68%), Gaps = 7/306 (2%)
Query: 40 ISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILASVD 99
I++IG GNVG A+A ++ + EL LVD +K +G+ LDL HA+AFL I+ D
Sbjct: 1 ITIIGAGNVGAAVAFALIAKGLASELVLVDVNEEKAKGDALDLSHASAFLATGTIVRGGD 60
Query: 100 YAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVDI 159
YA A +D+ ++TAGA + GE+RL+L+ RN + +++I L KY PD I+L+V+NPVDI
Sbjct: 61 YADAADADIVVITAGAPRKPGETRLDLINRNAPILRSVITNLKKYGPDAIILVVSNPVDI 120
Query: 160 LTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWS 219
LTYVA KLSGLP NRVIGSGT LDS+RFR LLA+ LDV+ Q V AY++GEHGDS V WS
Sbjct: 121 LTYVAQKLSGLPKNRVIGSGTLLDSARFRSLLAEKLDVDPQSVHAYVLGEHGDSQVVAWS 180
Query: 220 SISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARS 279
+ +VGG+P+ + K LE+I +EV S YE+I LKG T++ I + A++ +S
Sbjct: 181 TATVGGLPLEELAP-----FTKLDLEAIEEEVRTSGYEIIRLKGATNYGIATAIADIVKS 235
Query: 280 IIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSAK 339
I+ D+R++ PVS + +G YGI+ DV LS+PA +GR GV+ + I L ++E +L+ SA+
Sbjct: 236 ILLDERRVLPVSAVQEGQYGIE--DVALSVPAVVGREGVVRILEIPLTEDEEAKLQKSAE 293
Query: 340 TILEVQ 345
+ EV
Sbjct: 294 ALKEVL 299
>gnl|CDD|178836 PRK00066, ldh, L-lactate dehydrogenase; Reviewed.
Length = 315
Score = 356 bits (915), Expect = e-123
Identities = 127/317 (40%), Positives = 203/317 (64%), Gaps = 4/317 (1%)
Query: 34 TKRHTKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTK 93
K+H K+ ++G G VG + A ++ Q +EL ++D +K G+ +DL HA F TK
Sbjct: 3 KKQHNKVVLVGDGAVGSSYAYALVNQGIADELVIIDINKEKAEGDAMDLSHAVPFTSPTK 62
Query: 94 ILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIV 153
I A DY+ +DL ++TAGA Q GE+RL+L+++NL +FK+I+ ++ D I L+
Sbjct: 63 IYAG-DYSDCKDADLVVITAGAPQKPGETRLDLVEKNLKIFKSIVGEVMASGFDGIFLVA 121
Query: 154 ANPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDS 213
+NPVDILTY WKLSG P RVIGSGT+LDS+RFR++L++ LDV+ + V AYI+GEHGD+
Sbjct: 122 SNPVDILTYATWKLSGFPKERVIGSGTSLDSARFRYMLSEKLDVDPRSVHAYIIGEHGDT 181
Query: 214 SVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSA 273
+WS +V GVP+ +LE+ + Y++E L+ I + V D+AYE+I KG T + I +
Sbjct: 182 EFPVWSHANVAGVPLEEYLEENE-QYDEEDLDEIFENVRDAAYEIIEKKGATYYGIAMAL 240
Query: 274 ANLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHR 333
A + ++I+ ++ + PVS +G YG + DV++ +PA + R G+ + + LN +E +
Sbjct: 241 ARITKAILNNENAVLPVSAYLEGQYGEE--DVYIGVPAVVNRNGIREIVELPLNDDEKQK 298
Query: 334 LRNSAKTILEVQSQLGI 350
+SA + E+ + +
Sbjct: 299 FAHSADVLKEIMDEAFL 315
>gnl|CDD|133427 cd05291, HicDH_like, L-2-hydroxyisocapronate dehydrogenases and
some bacterial L-lactate dehydrogenases.
L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes
the conversion of a variety of 2-oxo carboxylic acids
with medium-sized aliphatic or aromatic side chains.
This subfamily is composed of HicDHs and some bacterial
L-lactate dehydrogenases (LDH). LDHs catalyze the last
step of glycolysis in which pyruvate is converted to
L-lactate. Bacterial LDHs can be non-allosteric or may
be activated by an allosteric effector such as
fructose-1,6-bisphosphate. Members of this subfamily
with known structures such as the HicDH of Lactobacillus
confusus, the non-allosteric LDH of Lactobacillus
pentosus, and the allosteric LDH of Bacillus
stearothermophilus, show that they exist as
homotetramers. The HicDH-like subfamily is part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 306
Score = 346 bits (890), Expect = e-119
Identities = 125/309 (40%), Positives = 194/309 (62%), Gaps = 4/309 (1%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILASV 98
K+ +IG G+VG + A +++ Q +EL L+D +K GE LDL+ A AFLP + +
Sbjct: 2 KVVIIGAGHVGSSFAYSLVNQGIADELVLIDINEEKAEGEALDLEDALAFLPSPVKIKAG 61
Query: 99 DYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVD 158
DY+ +D+ ++TAGA Q GE+RL+LL++N + K+I+P + D I L+ +NPVD
Sbjct: 62 DYSDCKDADIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKIKASGFDGIFLVASNPVD 121
Query: 159 ILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALW 218
++TYV KLSGLP NRVIG+GT+LD++R R LA+ L+V+ + V AY++GEHGDS W
Sbjct: 122 VITYVVQKLSGLPKNRVIGTGTSLDTARLRRALAEKLNVDPRSVHAYVLGEHGDSQFVAW 181
Query: 219 SSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLAR 278
S+++VGG P+L L++ + + L+ I ++V + YE+I+ KG T + I + A + +
Sbjct: 182 STVTVGGKPLLDLLKEGK--LSELDLDEIEEDVRKAGYEIINGKGATYYGIATALARIVK 239
Query: 279 SIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSA 338
+I+ D+ I PVS G YG DV++ +PA +GR GV V + L +EE + SA
Sbjct: 240 AILNDENAILPVSAYLDGEYGEK--DVYIGVPAIIGRNGVEEVIELDLTEEEQEKFEKSA 297
Query: 339 KTILEVQSQ 347
I E +
Sbjct: 298 DIIKENIKK 306
>gnl|CDD|223117 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production and
conversion].
Length = 313
Score = 330 bits (849), Expect = e-113
Identities = 131/307 (42%), Positives = 192/307 (62%), Gaps = 8/307 (2%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLP-RTKILAS 97
K++VIG GNVG ++A +L Q EL L+D +K G LDL HAAA L KI
Sbjct: 2 KVAVIGAGNVGSSLAFLLLLQGLGSELVLIDINEEKAEGVALDLSHAAAPLGSDVKITGD 61
Query: 98 VDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPV 157
DY G+D+ ++TAG + G +RL+LL++N + K I + KY+PD I+L+V NPV
Sbjct: 62 GDYEDLKGADIVVITAGVPRKPGMTRLDLLEKNAKIVKDIAKAIAKYAPDAIVLVVTNPV 121
Query: 158 DILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVAL 217
DILTY+A K SG P NRVIGSGT LDS+RFR LA+ L V+ +DV AY++GEHGD+ V L
Sbjct: 122 DILTYIAMKFSGFPKNRVIGSGTVLDSARFRTFLAEKLGVSPKDVHAYVIGEHGDTMVPL 181
Query: 218 WSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGY-TSWAIGYSAANL 276
WS +VGG P+ L++ +E LE + + V ++ E+I KG T + + A +
Sbjct: 182 WSQATVGGKPLEELLKE----DTEEDLEELIERVRNAGAEIIEAKGAGTYYGPAAALARM 237
Query: 277 ARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRN 336
+I+RD++++ PVSV G YG++ DV+ +PA LG+ GV + + L+ +E +L
Sbjct: 238 VEAILRDEKRVLPVSVYLDGEYGVE--DVYFGVPAVLGKNGVEEILELLLSDDEQEKLDK 295
Query: 337 SAKTILE 343
SA+ + +
Sbjct: 296 SAEELKK 302
>gnl|CDD|180477 PRK06223, PRK06223, malate dehydrogenase; Reviewed.
Length = 307
Score = 289 bits (742), Expect = 6e-97
Identities = 112/308 (36%), Positives = 173/308 (56%), Gaps = 15/308 (4%)
Query: 38 TKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPR-TKILA 96
KIS+IG GNVG +A + ++ + + L D +G+ LD+ AA TKI
Sbjct: 3 KKISIIGAGNVGATLAHLLALKELGD-VVLFDIVEGVPQGKALDIAEAAPVEGFDTKITG 61
Query: 97 SVDYAVTAGSDLCIVTAG-ARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVAN 155
+ DY AGSD+ ++TAG R+ G SR +LL N + K + + KY+PD I+++V N
Sbjct: 62 TNDYEDIAGSDVVVITAGVPRK-PGMSRDDLLGINAKIMKDVAEGIKKYAPDAIVIVVTN 120
Query: 156 PVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSV 215
PVD +TYVA K SG P NRVIG LDS+RFR +A+ L+V+ +DV A+++G HGDS V
Sbjct: 121 PVDAMTYVALKESGFPKNRVIGMAGVLDSARFRTFIAEELNVSVKDVTAFVLGGHGDSMV 180
Query: 216 ALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISL--KGYTSWAIGYSA 273
L +VGG+P+ L KE L+ I + E++ L G +A S
Sbjct: 181 PLVRYSTVGGIPLEDLL-------SKEKLDEIVERTRKGGAEIVGLLKTGSAYYAPAASI 233
Query: 274 ANLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHR 333
A + +I++D++++ P S +G YG+ DV++ +P +LG+ GV + + L+ EE
Sbjct: 234 AEMVEAILKDKKRVLPCSAYLEGEYGVK--DVYVGVPVKLGKNGVEKIIELELDDEEKAA 291
Query: 334 LRNSAKTI 341
S + +
Sbjct: 292 FDKSVEAV 299
>gnl|CDD|133424 cd01339, LDH-like_MDH, L-lactate dehydrogenase-like malate
dehydrogenase proteins. Members of this subfamily have
an LDH-like structure and an MDH enzymatic activity.
Some members, like MJ0490 from Methanococcus jannaschii,
exhibit both MDH and LDH activities. Tetrameric MDHs,
including those from phototrophic bacteria, are more
similar to LDHs than to other MDHs. LDH catalyzes the
last step of glycolysis in which pyruvate is converted
to L-lactate. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate. The
LDH-like MDHs are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 300
Score = 272 bits (699), Expect = 2e-90
Identities = 106/305 (34%), Positives = 177/305 (58%), Gaps = 13/305 (4%)
Query: 40 ISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAA-FLPRTKILASV 98
IS+IG GNVG +AQ + ++ + + L+D +G+ LD+ AA TK+ +
Sbjct: 1 ISIIGAGNVGATLAQLLALKELGD-VVLLDIVEGLPQGKALDISQAAPILGSDTKVTGTN 59
Query: 99 DYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVD 158
DY AGSD+ ++TAG + G SR +LL N + K + + KY+P+ I+++V NP+D
Sbjct: 60 DYEDIAGSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKYAPNAIVIVVTNPLD 119
Query: 159 ILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALW 218
++TYVA+K SG P NRVIG LDS+RFR+ +A+ L V+ +DVQA ++G HGD+ V L
Sbjct: 120 VMTYVAYKASGFPRNRVIGMAGVLDSARFRYFIAEELGVSVKDVQAMVLGGHGDTMVPLP 179
Query: 219 SSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTS--WAIGYSAANL 276
+VGG+P+ + K++I + I + + E+++L S +A + A +
Sbjct: 180 RYSTVGGIPLTELITKEEI-------DEIVERTRNGGAEIVNLLKTGSAYYAPAAAIAEM 232
Query: 277 ARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRN 336
+I++D++++ P S +G YGI D+F+ +P LG+ GV + + L EE
Sbjct: 233 VEAILKDKKRVLPCSAYLEGEYGIK--DIFVGVPVVLGKNGVEKIIELDLTDEEKEAFDK 290
Query: 337 SAKTI 341
S +++
Sbjct: 291 SVESV 295
>gnl|CDD|133426 cd05290, LDH_3, A subgroup of L-lactate dehydrogenases. L-lactate
dehydrogenases (LDH) are tetrameric enzymes catalyzing
the last step of glycolysis in which pyruvate is
converted to L-lactate. This subgroup is composed of
some bacterial LDHs from firmicutes,
gammaproteobacteria, and actinobacteria. Vertebrate LDHs
are non-allosteric, but some bacterial LDHs are
activated by an allosteric effector such as
fructose-1,6-bisphosphate. LDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenase, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 307
Score = 235 bits (602), Expect = 6e-76
Identities = 112/310 (36%), Positives = 175/310 (56%), Gaps = 9/310 (2%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAA--FLPRTKILA 96
K+ VIG G+VG A+ L E+ L+D GE LD HA A + TKI A
Sbjct: 1 KLVVIGAGHVGSAVLNYALALGLFSEIVLIDVNEGVAEGEALDFHHATALTYSTNTKIRA 60
Query: 97 SVDYAVTAGSDLCIVTAGARQIAGES--RLNLLQRNLSLFKAIIPPLVKYSPDCILLIVA 154
DY A +D+ ++TAG G + RL+L Q N + + I+ + K + + +++++
Sbjct: 61 G-DYDDCADADIIVITAGPSIDPGNTDDRLDLAQTNAKIIREIMGNITKVTKEAVIILIT 119
Query: 155 NPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSS 214
NP+DI Y+A P+N+VIG+GT LD++R R ++AD V+ ++V Y++GEHG +
Sbjct: 120 NPLDIAVYIAATEFDYPANKVIGTGTMLDTARLRRIVADKYGVDPKNVTGYVLGEHGSHA 179
Query: 215 VALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAA 274
+WS +++ G+P+ LE E + + +EVV +AY+V + KG+T+ I SA+
Sbjct: 180 FPVWSLVNIAGLPL-DELE-ALFGKEPIDKDELLEEVVQAAYDVFNRKGWTNAGIAKSAS 237
Query: 275 NLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRL 334
L ++I+ D+R I PV L G YG+ DV LSLP +G G+ V I L++ E +L
Sbjct: 238 RLIKAILLDERSILPVCTLLSGEYGL--SDVALSLPTVIGAKGIERVLEIPLDEWELEKL 295
Query: 335 RNSAKTILEV 344
SAK I E
Sbjct: 296 HKSAKAIRET 305
>gnl|CDD|133430 cd05294, LDH-like_MDH_nadp, A lactate dehydrogenases-like structure
with malate dehydrogenase enzymatic activity. The
LDH-like MDH proteins have a lactate
dehyhydrogenase-like (LDH-like) structure and malate
dehydrogenase (MDH) enzymatic activity. This subgroup is
composed of some archaeal LDH-like MDHs that prefer
NADP(H) rather than NAD(H) as a cofactor. One member,
MJ0490 from Methanococcus jannaschii, has been observed
to form dimers and tetramers during crystalization,
although it is believed to exist primarilly as a
tetramer in solution. In addition to its MDH activity,
MJ0490 also possesses
fructose-1,6-bisphosphate-activated LDH activity.
Members of this subgroup have a higher sequence
similarity to LDHs than to other MDHs. LDH catalyzes the
last step of glycolysis in which pyruvate is converted
to L-lactate. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate. The
LDH-like MDHs are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)- binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenase,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 309
Score = 221 bits (566), Expect = 2e-70
Identities = 119/308 (38%), Positives = 181/308 (58%), Gaps = 12/308 (3%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVEELALVDAKA--DKLRGEMLDLQHA-AAFLPRTKI 94
K+S+IG +G VG A A + +D V+E+ L+ +KL+G LD+ A AA +I
Sbjct: 2 KVSIIGASGRVGSATALLLAKEDVVKEINLISRPKSLEKLKGLRLDIYDALAAAGIDAEI 61
Query: 95 LASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVA 154
S D + AGSD+ I+TAG + G SRL+L ++N + K + +++PD +L+V
Sbjct: 62 KISSDLSDVAGSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEFAPDTKILVVT 121
Query: 155 NPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSS 214
NPVD++TY A K SG NRV G GT+LDS RF+ +A H +V+ +V I+GEHGDS
Sbjct: 122 NPVDVMTYKALKESGFDKNRVFGLGTHLDSLRFKVAIAKHFNVHISEVHTRIIGEHGDSM 181
Query: 215 VALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAA 274
V L SS S+GG+PI F E Y+ +E I + V ++ +ISLKG + + + +
Sbjct: 182 VPLISSTSIGGIPIKRFPE-----YKDFDVEKIVETVKNAGQNIISLKGGSEYGPASAIS 236
Query: 275 NLARSIIRDQRKIHPVSVLAKGFYGIDG-GDVFLSLPAQLGRGGVLGVTNIHLNQEESHR 333
NL R+I D+R+I VS +G IDG DV + +P +LG+ G+ + I ++ +E
Sbjct: 237 NLVRTIANDERRILTVSTYLEG--EIDGIRDVCIGVPVKLGKNGIEEIVPIEMDDDEREA 294
Query: 334 LRNSAKTI 341
R SA+ +
Sbjct: 295 FRKSAEIV 302
>gnl|CDD|133419 cd00650, LDH_MDH_like, NAD-dependent, lactate dehydrogenase-like,
2-hydroxycarboxylate dehydrogenase family. Members of
this family include ubiquitous enzymes like L-lactate
dehydrogenases (LDH), L-2-hydroxyisocaproate
dehydrogenases, and some malate dehydrogenases (MDH).
LDH catalyzes the last step of glycolysis in which
pyruvate is converted to L-lactate. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. The LDH/MDH-like proteins are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 263
Score = 214 bits (546), Expect = 4e-68
Identities = 110/310 (35%), Positives = 156/310 (50%), Gaps = 52/310 (16%)
Query: 40 ISVIG-TGNVGMAIAQTILTQ--DFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILA 96
I+VIG GNVG A+A + EL L D +KL+G +DLQ A L K+
Sbjct: 1 IAVIGAGGNVGPALAFGLADGSVLLAIELVLYDIDEEKLKGVAMDLQDAVEPLADIKVSI 60
Query: 97 SVD-YAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVAN 155
+ D Y +D+ I+TAG + G RL+LL+RN+ + K I + KYSPD +++V+N
Sbjct: 61 TDDPYEAFKDADVVIITAGVGRKPGMGRLDLLKRNVPIVKEIGDNIEKYSPDAWIIVVSN 120
Query: 156 PVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSV 215
PVDI+TY+ W+ SGLP +VIG GT LD RFR +LA+ L V+ DV+ YI+GEHG S V
Sbjct: 121 PVDIITYLVWRYSGLPKEKVIGLGT-LDPIRFRRILAEKLGVDPDDVKVYILGEHGGSQV 179
Query: 216 ALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAAN 275
WS++ I S A+
Sbjct: 180 PDWSTVR----------------------------------------------IATSIAD 193
Query: 276 LARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLR 335
L RS++ D+ +I PV V G GI DV +S+P +G+ GV + L E +L+
Sbjct: 194 LIRSLLNDEGEILPVGVRNNGQIGIP-DDVVVSVPCIVGKNGVEEPIEVGLTDFELEKLQ 252
Query: 336 NSAKTILEVQ 345
SA T+ +
Sbjct: 253 KSADTLKKEL 262
>gnl|CDD|173376 PTZ00082, PTZ00082, L-lactate dehydrogenase; Provisional.
Length = 321
Score = 201 bits (514), Expect = 1e-62
Identities = 97/314 (30%), Positives = 173/314 (55%), Gaps = 13/314 (4%)
Query: 36 RHTKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAA-FLPRTKI 94
+ KIS+IG+GN+G +A ++ + ++ L D + +G+ LD+ H+ +K+
Sbjct: 5 KRRKISLIGSGNIGGVMA-YLIVLKNLGDVVLFDIVKNIPQGKALDISHSNVIAGSNSKV 63
Query: 95 LASVDYAVTAGSDLCIVTAGARQIAGES-----RLNLLQRNLSLFKAIIPPLVKYSPDCI 149
+ + +Y AGSD+ IVTAG + G+S R +LL N + + + KY P+
Sbjct: 64 IGTNNYEDIAGSDVVIVTAGLTKRPGKSDKEWNRDDLLPLNAKIMDEVAEGIKKYCPNAF 123
Query: 150 LLIVANPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGE 209
++++ NP+D++ + + SGLP N+V G LDSSR R +A+ L VN +DV A ++G
Sbjct: 124 VIVITNPLDVMVKLLQEHSGLPKNKVCGMAGVLDSSRLRTYIAEKLGVNPRDVHASVIGA 183
Query: 210 HGDSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTS--W 267
HGD V L ++VGG+P+ F++K I E+ ++ I + ++ E++ L G S +
Sbjct: 184 HGDKMVPLPRYVTVGGIPLSEFIKKGLITQEE--IDEIVERTRNTGKEIVDLLGTGSAYF 241
Query: 268 AIGYSAANLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLN 327
A +A +A + ++D++++ P S +G YG D+++ PA +G GV + + L
Sbjct: 242 APAAAAIEMAEAYLKDKKRVLPCSAYLEGQYGHK--DIYMGTPAVIGANGVEKIIELDLT 299
Query: 328 QEESHRLRNSAKTI 341
EE + S K +
Sbjct: 300 PEEQKKFDESIKEV 313
>gnl|CDD|233562 TIGR01763, MalateDH_bact, malate dehydrogenase, NAD-dependent.
This enzyme converts malate into oxaloacetate in the
citric acid cycle. The critical residues which
discriminate malate dehydrogenase from lactate
dehydrogenase have been characterized , and have been
used to set the cutoffs for this model. Sequences
showing [aflimv][ap]R[rk]pgM[st] and [ltv][ilm]gGhgd
were kept above trusted, while those in which the
capitalized residues in the patterns were found to be Q,
E and E were kept below the noise cutoff. Some sequences
in the grey zone have been annotated as malate
dehydrogenases, but none have been characterized.
Phylogenetically, a clade of sequences from eukaryotes
such as Toxoplasma and Plasmodium which include a
characterized lactate dehydrogenase and show abiguous
critical residue patterns appears to be more closely
related to these bacterial sequences than other
eukaryotic sequences. These are relatively long branch
and have been excluded from the model. All other
sequences falling below trusted appear to be
phylogenetically outside of the clade including the
trusted hits. The annotation of Botryococcus braunii as
lactate dehydrogenase appears top be in error. This was
initially annotated as MDH by Swiss-Prot and then
changed. The rationale for either of these annotations
is not traceable [Energy metabolism, TCA cycle].
Length = 305
Score = 198 bits (504), Expect = 3e-61
Identities = 109/313 (34%), Positives = 176/313 (56%), Gaps = 13/313 (4%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAF-LPRTKILAS 97
KISVIG G VG A L + + +L L+D +G+ LD+ A+ TK+ +
Sbjct: 3 KISVIGAGFVGATTAF-RLAEKELADLVLLDVVEGIPQGKALDMYEASPVGGFDTKVTGT 61
Query: 98 VDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPV 157
+YA TA SD+ ++TAG + G SR +LL N + + + ++++SP+ I+++V+NP+
Sbjct: 62 NNYADTANSDIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEHSPNPIIVVVSNPL 121
Query: 158 DILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVAL 217
D +TYVAW+ SG P RVIG LDS+RFR +A L V+ QDV A ++G HGD+ V L
Sbjct: 122 DAMTYVAWQKSGFPKERVIGQAGVLDSARFRTFIAMELGVSVQDVTACVLGGHGDAMVPL 181
Query: 218 WSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISL--KGYTSWAIGYSAAN 275
+V G+P+ + ++IA E +E K E+++L +G +A S
Sbjct: 182 VRYSTVAGIPVADLISAERIA---EIVERTRK----GGGEIVNLLKQGSAYYAPAASVVE 234
Query: 276 LARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLR 335
+ +I++D++++ P + G YGIDG +++ +P LG+ GV + + L+Q E L
Sbjct: 235 MVEAILKDRKRVLPCAAYLDGQYGIDG--IYVGVPVILGKNGVEHIYELKLDQSELALLN 292
Query: 336 NSAKTILEVQSQL 348
SAK + E L
Sbjct: 293 KSAKIVDENCKML 305
>gnl|CDD|200963 pfam00056, Ldh_1_N, lactate/malate dehydrogenase, NAD binding
domain. L-lactate dehydrogenases are metabolic enzymes
which catalyze the conversion of L-lactate to pyruvate,
the last step in anaerobic glycolysis.
L-2-hydroxyisocaproate dehydrogenases are also members
of the family. Malate dehydrogenases catalyze the
interconversion of malate to oxaloacetate. The enzyme
participates in the citric acid cycle. L-lactate
dehydrogenase is also found as a lens crystallin in bird
and crocodile eyes. N-terminus (this family) is a
Rossmann NAD-binding fold. C-terminus is an unusual
alpha+beta fold.
Length = 142
Score = 185 bits (472), Expect = 2e-58
Identities = 65/142 (45%), Positives = 91/142 (64%), Gaps = 1/142 (0%)
Query: 38 TKISVIGT-GNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLPRTKILA 96
K++V+G G VG ++A + Q +EL LVD DK G +DL H + FL I+
Sbjct: 1 VKVAVVGAGGGVGSSLAFALALQGLADELVLVDINKDKAEGVAMDLSHGSTFLSVPGIVG 60
Query: 97 SVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANP 156
DY +D+ ++TAG + G +RL+LL RN +FK I+P + K +PD I+L+V+NP
Sbjct: 61 GDDYEALKDADVVVITAGVPRKPGMTRLDLLNRNAGIFKDIVPAIAKSAPDAIVLVVSNP 120
Query: 157 VDILTYVAWKLSGLPSNRVIGS 178
VDILTY+AWK+SGLP RVIGS
Sbjct: 121 VDILTYIAWKVSGLPPERVIGS 142
>gnl|CDD|173409 PTZ00117, PTZ00117, malate dehydrogenase; Provisional.
Length = 319
Score = 185 bits (471), Expect = 3e-56
Identities = 94/313 (30%), Positives = 165/313 (52%), Gaps = 8/313 (2%)
Query: 34 TKRHTKISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFL-PRT 92
+ KIS+IG G +G +A IL ++ + ++ L D +G+ LDL+H + +
Sbjct: 2 VVKRKKISMIGAGQIGSTVALLILQKN-LGDVVLYDVIKGVPQGKALDLKHFSTLVGSNI 60
Query: 93 KILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLI 152
IL + +Y SD+ ++TAG ++ +R +LL N + K++ + KY P+ ++
Sbjct: 61 NILGTNNYEDIKDSDVVVITAGVQRKEEMTREDLLTINGKIMKSVAESVKKYCPNAFVIC 120
Query: 153 VANPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGD 212
V NP+D + V + SG+PSN++ G LDSSRFR LA+ L V+ DV A ++G HGD
Sbjct: 121 VTNPLDCMVKVFQEKSGIPSNKICGMAGVLDSSRFRCNLAEKLGVSPGDVSAVVIGGHGD 180
Query: 213 SSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISL--KGYTSWAIG 270
V L +V G+P+ F++K I ++ + I K+ + E++ L KG +A
Sbjct: 181 LMVPLPRYCTVNGIPLSDFVKKGAIT--EKEINEIIKKTRNMGGEIVKLLKKGSAFFAPA 238
Query: 271 YSAANLARSIIRDQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEE 330
+ + + ++D++++ SV G Y ++F+ +P +G G+ V + LN EE
Sbjct: 239 AAIVAMIEAYLKDEKRVLVCSVYLNGQYNCK--NLFVGVPVVIGGKGIEKVIELELNAEE 296
Query: 331 SHRLRNSAKTILE 343
S ++I E
Sbjct: 297 KELFDKSIESIQE 309
>gnl|CDD|202437 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyze the conversion of
L-lactate to pyruvate, the last step in anaerobic
glycolysis. L-2-hydroxyisocaproate dehydrogenases are
also members of the family. Malate dehydrogenases
catalyze the interconversion of malate to oxaloacetate.
The enzyme participates in the citric acid cycle.
L-lactate dehydrogenase is also found as a lens
crystallin in bird and crocodile eyes.
Length = 173
Score = 128 bits (323), Expect = 6e-36
Identities = 55/166 (33%), Positives = 90/166 (54%), Gaps = 4/166 (2%)
Query: 180 TNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWSSISVGGVPILSFLEKQQIAY 239
T LD++R R LA+ V+ + V Y++GEH + WS V +P++S K+ +
Sbjct: 1 TTLDTARARTFLAEKFGVDPRSVNVYVIGEHSGTQFPDWSHAKVTIIPLIS-QVKENLKD 59
Query: 240 EKETLESIHKEVVDSAYEVISLK-GYTSWAIGYSAANLARSIIRDQRKIHPVSVLAKGFY 298
LE + + V ++ YEVI K G T++++ Y+AA +A++I+R + V V G+Y
Sbjct: 60 TDWELEELIERVQNAGYEVIEAKAGSTTYSMAYAAARIAKAILRGTGGVLSVGVYLDGYY 119
Query: 299 GIDGGDVFLSLPAQLGRGGVLGVTNI-HLNQEESHRLRNSAKTILE 343
G D++ S+P LG+ GV V I LN E +L SA + +
Sbjct: 120 GSP-DDIYFSVPVVLGKDGVEKVVEILPLNDFEREKLEKSAAELKK 164
>gnl|CDD|240360 PTZ00325, PTZ00325, malate dehydrogenase; Provisional.
Length = 321
Score = 61.2 bits (149), Expect = 1e-10
Identities = 74/300 (24%), Positives = 124/300 (41%), Gaps = 33/300 (11%)
Query: 32 SPTKRHTKISVIG-TGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLP 90
+ K++V+G G +G ++ + V EL+L D G DL H
Sbjct: 3 PSALKMFKVAVLGAAGGIGQPLSLLLKQNPHVSELSLYDIVG--APGVAADLSHIDTPAK 60
Query: 91 RTKILASVDYAVTA-GSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCI 149
T + G+DL ++ AG + G +R +L N + + ++ + +P I
Sbjct: 61 VTGYADGELWEKALRGADLVLICAGVPRKPGMTRDDLFNTNAPIVRDLVAAVASSAPKAI 120
Query: 150 LLIVANPVDILTYVAW----KLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAY 205
+ IV+NPV+ +A K ++ G T LD R R +A+ L +N DV
Sbjct: 121 VGIVSNPVNSTVPIAAETLKKAGVYDPRKLFGV-TTLDVVRARKFVAEALGMNPYDVNVP 179
Query: 206 IVGEHGDSSVALWSSISVGGVPILSFLEKQQIAYE--KETLESIHKEVVDSAYEVISLK- 262
+VG H ++ VP+LS Q +E +E I V EV+ K
Sbjct: 180 VVGGHSGVTI----------VPLLS-----QTGLSLPEEQVEQITHRVQVGGDEVVKAKE 224
Query: 263 --GYTSWAIGYSAANLARSIIRDQRKIHPVSVLAKGFYGIDGGD--VFLSLPAQLGRGGV 318
G + ++ Y+AA + S+++ R ++ F D F S P +LG+ GV
Sbjct: 225 GAGSATLSMAYAAAEWSTSVLKALRG--DKGIVECAFVESDMRPECPFFSSPVELGKEGV 282
>gnl|CDD|133420 cd00704, MDH, Malate dehydrogenase. Malate dehydrogenase (MDH) is
one of the key enzymes in the citric acid cycle,
facilitating both the conversion of malate to
oxaloacetate and replenishing levels of oxalacetate by
reductive carboxylation of pyruvate. MDHs belong to the
NAD-dependent, lactate dehydrogenase (LDH)-like,
2-hydroxycarboxylate dehydrogenase family, which also
includes the GH4 family of glycoside hydrolases. They
are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 323
Score = 61.1 bits (149), Expect = 2e-10
Identities = 63/246 (25%), Positives = 106/246 (43%), Gaps = 15/246 (6%)
Query: 107 DLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKY-SPDCILLIVANPVDILTYVAW 165
D+ I+ + G R +LL++N +FK L K P +L+V NP + +A
Sbjct: 78 DVAILVGAFPRKPGMERADLLRKNAKIFKEQGEALNKVAKPTVKVLVVGNPANTNALIAL 137
Query: 166 KLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIV-GEHGDSSVALWSSISVG 224
K + + + T LD +R + +A L V DV+ I+ G H ++ V S+ V
Sbjct: 138 KNAPNLPPKNFTALTRLDHNRAKAQVARKLGVRVSDVKNVIIWGNHSNTQVPDLSNAVVY 197
Query: 225 GVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRD- 283
G ++ + E+ + K V +I +G +S A SAA ++D
Sbjct: 198 GPGGTEWVL--DLLDEEWLNDEFVKTVQKRGAAIIKKRGASSAA---SAAKAIADHVKDW 252
Query: 284 -----QRKIHPVSVLAKG-FYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNS 337
+I + V + G YGI G VF S P GG V ++ LN +L+ +
Sbjct: 253 LFGTPPGEIVSMGVYSPGNPYGIPPGIVF-SFPCTCKGGGWHVVEDLKLNDWLREKLKAT 311
Query: 338 AKTILE 343
+ ++E
Sbjct: 312 EEELIE 317
>gnl|CDD|130817 TIGR01756, LDH_protist, lactate dehydrogenase. This model
represents a family of protist lactate dehydrogenases
which have aparrently evolved from a recent protist
malate dehydrogenase ancestor. Lactate dehydrogenase
converts the hydroxyl at C-2 of lactate to a carbonyl in
the product, pyruvate. The preference of this enzyme for
NAD or NADP has not been determined. A critical residue
in malate dehydrogenase, arginine-91 (T. vaginalis
numbering) has been mutated to a leucine, eliminating
the positive charge which complemeted the carboxylate in
malate which is absent in lactate. Several other more
subtle changes are proposed to make the active site
smaller to accomadate the less bulky lactate molecule.
Length = 313
Score = 57.6 bits (139), Expect = 2e-09
Identities = 64/240 (26%), Positives = 102/240 (42%), Gaps = 27/240 (11%)
Query: 120 GESRLNLLQRNLSLFKAIIPPLVKYS-PDCILLIVANPVDILTYVAWKLSGLPSNRVIGS 178
GE R +LL +N +FKA L +Y+ P +L++ NPV+ VA + S S
Sbjct: 75 GEVRADLLTKNTPIFKATGEALSEYAKPTVKVLVIGNPVNTNCLVAMLHAPKLSAENFSS 134
Query: 179 GTNLDSSRFRFLLADHLDVNAQDVQAYIV-GEHGDSSVALWSSISV--GGVPILSFLEKQ 235
LD +R +A L V + +V G H +S VA + G F E
Sbjct: 135 LCMLDHNRAVSRIASKLKVPVDHIYHVVVWGNHAESMVADLTHAEFTKNGKHQKVFDELC 194
Query: 236 QIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRDQRK----IHPVS 291
+ E + E I + A++++ ++G+T SAA+ ++ ++ + P
Sbjct: 195 RDYPEPDFFEVIAQR----AWKILEMRGFT------SAASPVKASLQHMKAWLFGTRPGE 244
Query: 292 VLAKGF-------YGIDGGDVFLSLPAQLGRGG-VLGVTNIHLNQEESHRLRNSAKTILE 343
VL+ G YGI G +F S P + G V V N LN +L + K + E
Sbjct: 245 VLSMGIPVPEGNPYGIKPGVIF-SFPCTVDEDGKVHVVENFELNPWLKTKLAQTEKDLFE 303
>gnl|CDD|130833 TIGR01772, MDH_euk_gproteo, malate dehydrogenase, NAD-dependent.
This model represents the NAD-dependent malate
dehydrogenase found in eukaryotes and certain gamma
proteobacteria. The enzyme is involved in the citric
acid cycle as well as the glyoxalate cycle. Several
isoforms exidt in eukaryotes. In S. cereviseae, for
example, there are cytoplasmic, mitochondrial and
peroxisomal forms. Although malate dehydrogenases have
in some cases been mistaken for lactate dehydrogenases
due to the similarity of these two substrates and the
apparent ease with which evolution can toggle these
activities, critical residues have been identified which
can discriminate between the two activities. At the time
of the creation of this model no hits above the trusted
cutoff contained critical residues typical of lactate
dehydrogenases [Energy metabolism, TCA cycle].
Length = 312
Score = 54.7 bits (132), Expect = 2e-08
Identities = 61/298 (20%), Positives = 128/298 (42%), Gaps = 41/298 (13%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQH------AAAFLPR 91
K++V+G G +G ++ + Q +V EL+L D G DL H F
Sbjct: 1 KVAVLGAAGGIGQPLSLLLKLQPYVSELSLYDIAGAA--GVAADLSHIPTAASVKGFSGE 58
Query: 92 TKILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILL 151
+ ++ G+D+ ++ AG + G +R +L N + K ++ + + P ++L
Sbjct: 59 EGLENALK-----GADVVVIPAGVPRKPGMTRDDLFNVNAGIVKDLVAAVAESCPKAMIL 113
Query: 152 IVANPVDILTYVAW----KLSGLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIV 207
++ NPV+ +A K N++ G T LD R +A+ + +V ++
Sbjct: 114 VITNPVNSTVPIAAEVLKKKGVYDPNKLFGV-TTLDIVRANTFVAELKGKDPMEVNVPVI 172
Query: 208 GEHGDSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLK---GY 264
G H ++ +P++S ++ + ++ LE++ + ++ EV+ K G
Sbjct: 173 GGHSGETI----------IPLISQCP-GKVLFTEDQLEALIHRIQNAGTEVVKAKAGAGS 221
Query: 265 TSWAIGYSAANLARSIIR----DQRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGV 318
+ ++ ++ A S++R ++ + V + G F + P LG+ GV
Sbjct: 222 ATLSMAFAGARFVLSLVRGLKGEEGVVECAYVESDGVTEAT----FFATPLLLGKNGV 275
>gnl|CDD|130820 TIGR01759, MalateDH-SF1, malate dehydrogenase. This model
represents a family of malate dehydrogenases in bacteria
and eukaryotes which utilize either NAD or NADP
depending on the species and context. MDH interconverts
malate and oxaloacetate and is a part of the citric acid
cycle as well as the C4 cycle in certain photosynthetic
organisms.
Length = 323
Score = 53.9 bits (130), Expect = 4e-08
Identities = 66/254 (25%), Positives = 105/254 (41%), Gaps = 22/254 (8%)
Query: 75 LRGEMLDLQHAA-AFLPRTKILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSL 133
L G ++L+ A L + A D ++ + G R +LL +N +
Sbjct: 49 LEGVAMELEDCAFPLLAGVVATTDPEEAFK-DVDAALLVGAFPRKPGMERADLLSKNGKI 107
Query: 134 FKAIIPPLVKY-SPDCILLIVANPVDILTYVAWKLS-GLPSNRVIGSGTNLDSSRFRFLL 191
FK L K D +L+V NP + +A K + +P + T LD +R ++ L
Sbjct: 108 FKEQGKALNKVAKKDVKVLVVGNPANTNALIASKNAPDIPPKNF-SAMTRLDHNRAKYQL 166
Query: 192 ADHLDVNAQDVQAYIV-GEHGDSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKE 250
A V DV+ I+ G H ++ V ++ +V G P+ + K E E + ++ +
Sbjct: 167 AAKAGVPVSDVKNVIIWGNHSNTQVPDFTHATVDGRPVKEVI-KDDKWLEGEFIPTVQQR 225
Query: 251 VVDSAYEVISLKGYTSWAIGYSAANLARSIIRDQRKIHP------VSVLAKGF-YGIDGG 303
VI +G +S A SAAN A +RD P + V + G YGI G
Sbjct: 226 ----GAAVIEARGASSAA---SAANAAIDHVRDWVTGTPEGDWVSMGVYSDGNPYGIPEG 278
Query: 304 DVFLSLPAQLGRGG 317
+F S P G
Sbjct: 279 IIF-SFPVTCKGDG 291
>gnl|CDD|133422 cd01337, MDH_glyoxysomal_mitochondrial, Glyoxysomal and
mitochondrial malate dehydrogenases. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. Members of this subfamily are
localized to the glycosome and mitochondria. MDHs are
part of the NAD(P)-binding Rossmann fold superfamily,
which includes a wide variety of protein families
including the NAD(P)-binding domains of alcohol
dehydrogenases, tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 310
Score = 53.6 bits (130), Expect = 4e-08
Identities = 69/303 (22%), Positives = 131/303 (43%), Gaps = 52/303 (17%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVEELALVDAKADKLRGEMLDLQH------AAAFLPR 91
K++V+G G +G ++ + V ELAL D G DL H +L
Sbjct: 2 KVAVLGAAGGIGQPLSLLLKLNPLVSELALYDIVNTP--GVAADLSHINTPAKVTGYLGP 59
Query: 92 TKILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILL 151
++ ++ G+D+ ++ AG + G +R +L N + + + + K P ++L
Sbjct: 60 EELKKALK-----GADVVVIPAGVPRKPGMTRDDLFNINAGIVRDLATAVAKACPKALIL 114
Query: 152 IVANPVDILTYVA---WKLSG-LPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIV 207
I++NPV+ +A K +G R+ G T LD R +A+ L ++ V ++
Sbjct: 115 IISNPVNSTVPIAAEVLKKAGVYDPKRLFGV-TTLDVVRANTFVAELLGLDPAKVNVPVI 173
Query: 208 GEHGDSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVISLK---GY 264
G H S +++ +P+LS + +++E +E++ + EV+ K G
Sbjct: 174 GGH--------SGVTI--LPLLS-QCQPPFTFDQEEIEALTHRIQFGGDEVVKAKAGAGS 222
Query: 265 TSWAIGYSAANLARSIIRDQRKIHPVSVLAKG--------FYGIDGGDV-FLSLPAQLGR 315
+ ++ Y+ A A S++R KG + D + F + P +LG+
Sbjct: 223 ATLSMAYAGARFANSLLR----------GLKGEKGVIECAYVESDVTEAPFFATPVELGK 272
Query: 316 GGV 318
GV
Sbjct: 273 NGV 275
>gnl|CDD|133423 cd01338, MDH_choloroplast_like, Chloroplast-like malate
dehydrogenases. MDH is one of the key enzymes in the
citric acid cycle, facilitating both the conversion of
malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate.
Members of this subfamily are bacterial MDHs, and plant
MDHs localized to the choloroplasts. MDHs are part of
the NAD(P)-binding Rossmann fold superfamily, which
includes a wide variety of protein families including
the NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 322
Score = 49.9 bits (120), Expect = 8e-07
Identities = 70/280 (25%), Positives = 122/280 (43%), Gaps = 23/280 (8%)
Query: 75 LRGEMLDLQHAAAFLPRTKILASVD-YAVTAGSDLCI-VTAGARQIAGESRLNLLQRNLS 132
L G ++L+ A F +I+ + D +D + V A R G R +LL+ N
Sbjct: 48 LEGVAMELEDCA-FPLLAEIVITDDPNVAFKDADWALLVGAKPRG-PGMERADLLKANGK 105
Query: 133 LFKAIIPPLVKY-SPDCILLIVANPVDILTYVAWKLS-GLPSNRVIGSGTNLDSSRFRFL 190
+F A L S D +L+V NP + +A K + +P + + T LD +R +
Sbjct: 106 IFTAQGKALNDVASRDVKVLVVGNPCNTNALIAMKNAPDIPPDN-FTAMTRLDHNRAKSQ 164
Query: 191 LADHLDVNAQDVQAYIV-GEHGDSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHK 249
LA V DV+ ++ G H + +++ ++GG P + + E E + ++ K
Sbjct: 165 LAKKAGVPVTDVKNMVIWGNHSPTQYPDFTNATIGGKPAAEVINDRA-WLEDEFIPTVQK 223
Query: 250 EVVDSAYEVISLKGYTSWAIGYSAANLARSIIRD------QRKIHPVSVLAKGFYGIDGG 303
+I +G +S A SAAN A +RD + ++V + G YGI G
Sbjct: 224 R----GAAIIKARGASSAA---SAANAAIDHMRDWVLGTPEGDWFSMAVPSDGSYGIPEG 276
Query: 304 DVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSAKTILE 343
+F S P + GG V + ++ ++ + +LE
Sbjct: 277 LIF-SFPVRSKGGGYEIVEGLEIDDFAREKIDATLAELLE 315
>gnl|CDD|130819 TIGR01758, MDH_euk_cyt, malate dehydrogenase, NAD-dependent. This
model represents the NAD-dependent cytosolic malate
dehydrogenase from eukaryotes. The enzyme from pig has
been studied by X-ray crystallography.
Length = 324
Score = 48.3 bits (115), Expect = 3e-06
Identities = 48/216 (22%), Positives = 83/216 (38%), Gaps = 16/216 (7%)
Query: 75 LRGEMLDLQHAAAFLPRTKILASVDYAVT-AGSDLCIVTAGARQIAGESRLNLLQRNLSL 133
L G +++L A F ++ + D AV D+ I+ + G R +LL +N+ +
Sbjct: 45 LEGVVMELMDCA-FPLLDGVVPTHDPAVAFTDVDVAILVGAFPRKEGMERRDLLSKNVKI 103
Query: 134 FKAIIPPLVKY-SPDCILLIVANPVDILTYVAWKLSGLPSNRVIGSGTNLDSSRFRFLLA 192
FK L K DC +L+V NP + V + + + T LD +R +A
Sbjct: 104 FKEQGRALDKLAKKDCKVLVVGNPANTNALVLSNYAPSIPPKNFSALTRLDHNRALAQVA 163
Query: 193 DHLDVNAQDVQAYIV-GEHGDSSVALWSSISV----GGVPILSFLEKQQIAYEKETLESI 247
+ V DV+ I+ G H + + +V P+ ++ I +
Sbjct: 164 ERAGVPVSDVKNVIIWGNHSSTQYPDVNHATVTKGGKQKPV-----REAIKDDAYLDGEF 218
Query: 248 HKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRD 283
V +I + +S SAA A + D
Sbjct: 219 ITTVQQRGAAIIRARKLSSAL---SAAKAAVDQMHD 251
>gnl|CDD|177744 PLN00135, PLN00135, malate dehydrogenase.
Length = 309
Score = 44.8 bits (106), Expect = 3e-05
Identities = 43/148 (29%), Positives = 75/148 (50%), Gaps = 16/148 (10%)
Query: 72 ADKLRGEMLDLQHAAAFLPRTKILASVDYA-VTAGSDLCIVTAGARQIAGESRLNLLQRN 130
A+ L G ++L AA L + ++A+ D G ++ ++ G + G R +++ +N
Sbjct: 25 AEALNGVKMELIDAAFPLLK-GVVATTDVVEACKGVNIAVMVGGFPRKEGMERKDVMSKN 83
Query: 131 LSLFKAIIPPLVKY-SPDCILLIVANPVD----ILTYVAWKLSGLPS--NRVIGSGTNLD 183
+S++K+ L K+ +PDC +L+VANP + IL A PS + I T LD
Sbjct: 84 VSIYKSQASALEKHAAPDCKVLVVANPANTNALILKEFA------PSIPEKNITCLTRLD 137
Query: 184 SSRFRFLLADHLDVNAQDVQAYIV-GEH 210
+R +++ L V DV+ I+ G H
Sbjct: 138 HNRALGQISERLGVPVSDVKNVIIWGNH 165
>gnl|CDD|133421 cd01336, MDH_cytoplasmic_cytosolic, Cytoplasmic and cytosolic
Malate dehydrogenases. MDH is one of the key enzymes in
the citric acid cycle, facilitating both the conversion
of malate to oxaloacetate and replenishing levels of
oxalacetate by reductive carboxylation of pyruvate.
Members of this subfamily are eukaryotic MDHs localized
to the cytoplasm and cytosol. MDHs are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 325
Score = 43.8 bits (104), Expect = 8e-05
Identities = 68/297 (22%), Positives = 117/297 (39%), Gaps = 29/297 (9%)
Query: 64 ELALVD--AKADKLRGEMLDLQHAAAFLPRTK-ILASVDYAVT-AGSDLCIVTAGARQIA 119
L L+D L G +++LQ A P K ++A+ D D+ I+ +
Sbjct: 35 ILHLLDIPPALKALEGVVMELQDCA--FPLLKSVVATTDPEEAFKDVDVAILVGAMPRKE 92
Query: 120 GESRLNLLQRNLSLFKAIIPPLVKY-SPDCILLIVANPVDILTYVAWKL-SGLPSNRVIG 177
G R +LL+ N+ +FK L KY + +L+V NP + + K +P
Sbjct: 93 GMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPANTNALILLKYAPSIPK-ENFT 151
Query: 178 SGTNLDSSRFRFLLADHLDVNAQDVQAYIV-GEHGDSSVALWSSISV----GGVPILSFL 232
+ T LD +R + +A L V DV+ I+ G H + + +V G P +
Sbjct: 152 ALTRLDHNRAKSQIALKLGVPVSDVKNVIIWGNHSSTQYPDVNHATVELNGKGKPAREAV 211
Query: 233 EKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRD------QRK 286
+ A+ S V VI + +S SAA + D + +
Sbjct: 212 KDD--AWLNGEFIST---VQKRGAAVIKARKLSSAM---SAAKAICDHVHDWWFGTPEGE 263
Query: 287 IHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQEESHRLRNSAKTILE 343
+ V + G YG+ G +F S P G V + ++ ++ +AK ++E
Sbjct: 264 FVSMGVYSDGSYGVPEGLIF-SFPVTCKNGKWKIVQGLSIDDFSREKIDATAKELVE 319
>gnl|CDD|235340 PRK05086, PRK05086, malate dehydrogenase; Provisional.
Length = 312
Score = 42.3 bits (100), Expect = 2e-04
Identities = 64/258 (24%), Positives = 118/258 (45%), Gaps = 33/258 (12%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVE-ELALVDAKADKLRGEMLDLQHAAAFLP---RTK 93
K++V+G G +G A+A + TQ EL+L D A G +DL H +P + K
Sbjct: 2 KVAVLGAAGGIGQALALLLKTQLPAGSELSLYDI-APVTPGVAVDLSH----IPTAVKIK 56
Query: 94 ILASVDYAVT-AGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLI 152
+ D G+D+ +++AG + G R +L N + K ++ + K P + I
Sbjct: 57 GFSGEDPTPALEGADVVLISAGVARKPGMDRSDLFNVNAGIVKNLVEKVAKTCPKACIGI 116
Query: 153 VANPVDILTYVA---WKLSGL-PSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVG 208
+ NPV+ +A K +G+ N++ G T LD R +A+ +V+ ++G
Sbjct: 117 ITNPVNTTVAIAAEVLKKAGVYDKNKLFGV-TTLDVIRSETFVAELKGKQPGEVEVPVIG 175
Query: 209 EHGDSSVALWSSISVGGVPILSFLEK-QQIAYEKETLESIHKEVVDSAYEVISLK---GY 264
H GV IL L + +++ ++ + + K + ++ EV+ K G
Sbjct: 176 GH-------------SGVTILPLLSQVPGVSFTEQEVADLTKRIQNAGTEVVEAKAGGGS 222
Query: 265 TSWAIGYSAANLARSIIR 282
+ ++G +AA S++R
Sbjct: 223 ATLSMGQAAARFGLSLVR 240
>gnl|CDD|215058 PLN00106, PLN00106, malate dehydrogenase.
Length = 323
Score = 41.5 bits (98), Expect = 4e-04
Identities = 48/188 (25%), Positives = 90/188 (47%), Gaps = 25/188 (13%)
Query: 105 GSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVDILTYVA 164
G+DL I+ AG + G +R +L N + K + + K+ P+ ++ I++NPV+ +A
Sbjct: 86 GADLVIIPAGVPRKPGMTRDDLFNINAGIVKTLCEAVAKHCPNALVNIISNPVNSTVPIA 145
Query: 165 ---WKLSGL--PSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWS 219
K +G+ P ++ G T LD R +A+ ++ DV +VG H
Sbjct: 146 AEVLKKAGVYDP-KKLFGV-TTLDVVRANTFVAEKKGLDPADVDVPVVGGH--------- 194
Query: 220 SISVGGVPILSFLE--KQQIAYEKETLESIHKEVVDSAYEVISLK---GYTSWAIGYSAA 274
G+ IL L ++++ E +E++ K + + EV+ K G + ++ Y+AA
Sbjct: 195 ----AGITILPLLSQATPKVSFTDEEIEALTKRIQNGGTEVVEAKAGAGSATLSMAYAAA 250
Query: 275 NLARSIIR 282
A + +R
Sbjct: 251 RFADACLR 258
>gnl|CDD|133431 cd05295, MDH_like, Malate dehydrogenase-like. These MDH-like
proteins are related to other groups in the MDH family
but do not have conserved substrate and cofactor binding
residues. MDH is one of the key enzymes in the citric
acid cycle, facilitating both the conversion of malate
to oxaloacetate and replenishing levels of oxalacetate
by reductive carboxylation of pyruvate. Members of this
subgroup are uncharacterized MDH-like proteins from
animals. They are part of the NAD(P)-binding Rossmann
fold superfamily, which includes a wide variety of
protein families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 452
Score = 38.1 bits (89), Expect = 0.005
Identities = 62/299 (20%), Positives = 121/299 (40%), Gaps = 52/299 (17%)
Query: 63 EELA--LVDAKA--DKLRG---EMLDLQHAAAFLPRTKILASVDYAVTAGSDLCIVTAGA 115
EE++ L+D+ +KL+G E+ DL A L + +D A + + ++
Sbjct: 153 EEISIHLLDSPENLEKLKGLVMEVEDL--AFPLLRGISVTTDLDVAFK-DAHVIVLLDDF 209
Query: 116 RQIAGESRLNLLQRNLSLFKAIIPPLVKY--SPDCILLIVANPVDILTYVAWKLSGLPSN 173
GE ++ +++ + P + K +++ +++ T + K +
Sbjct: 210 LIKEGEDLEGCIRSRVAICQLYGPLIEKNAKEDVKVIVAGRTFLNLKTSILIKYAPSIPR 269
Query: 174 RVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWSSISVGGVPILSFLE 233
+ I + L +R + LLA L+VN+ ++ IV W +I LS
Sbjct: 270 KNIIAVARLQENRAKALLARKLNVNSAGIKDVIV----------WGNIGGNTYIDLS--- 316
Query: 234 KQQI-----------AYEKETLESIH------KEVVDSAYEVISLKGYTSWAIGYSAANL 276
K ++ Y + LE +H E V + + +S AI S A+
Sbjct: 317 KARVYRYDSAIWGPPNYSRPVLELVHDSKWINGEFV-ATLKSLSSSLNHEAAI--SPAHA 373
Query: 277 ARSIIRD------QRKIHPVSVLAKGFYGIDGGDVFLSLPAQLGRGGVLGVTNIHLNQE 329
+ + +I + V+++G+YGI G VF S+P + G VT++ L++
Sbjct: 374 IATTLSYWYHGSPPGEIFSLGVISEGWYGIPEGIVF-SMPVKFQNGSWEVVTDLELSEI 431
>gnl|CDD|180269 PRK05808, PRK05808, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 282
Score = 35.3 bits (82), Expect = 0.035
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 17/89 (19%)
Query: 39 KISVIGTGNVGMAIAQTI-----------LTQDFVEE-LALVDAKADKL--RGEMLDLQH 84
KI VIG G +G IAQ ++ V+ LA + D+L +G+M +
Sbjct: 5 KIGVIGAGTMGNGIAQVCAVAGYDVVMVDISDAAVDRGLATITKSLDRLVKKGKMTEADK 64
Query: 85 AAAFLPRTKILASVDYAVTAGSDLCIVTA 113
AA +I + D +DL I A
Sbjct: 65 EAAL---ARITGTTDLDDLKDADLVIEAA 90
>gnl|CDD|235468 PRK05442, PRK05442, malate dehydrogenase; Provisional.
Length = 326
Score = 34.8 bits (81), Expect = 0.056
Identities = 55/207 (26%), Positives = 87/207 (42%), Gaps = 20/207 (9%)
Query: 114 GAR-QIAGESRLNLLQRNLSLFKAIIPPLVKY-SPDCILLIVANPVDILTYVAWK-LSGL 170
GAR + G R +LL+ N ++F A L + + D +L+V NP + +A K L
Sbjct: 88 GARPRGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVLVVGNPANTNALIAMKNAPDL 147
Query: 171 PSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIV-GEHGDSSVALWSSISVGGVPIL 229
P+ + T LD +R LA V D++ V G H + + ++ G P
Sbjct: 148 PAEN-FTAMTRLDHNRALSQLAAKAGVPVADIKKMTVWGNHSATQYPDFRHATIDGKPAA 206
Query: 230 SFLEKQQIAYEKETLESIHKEVVDSAYEVISLKGYTSWAIGYSAANLARSIIRD------ 283
+ Q E + ++ K +I +G +S A SAAN A +RD
Sbjct: 207 EVINDQA-WLEDTFIPTVQKR----GAAIIEARGASSAA---SAANAAIDHVRDWVLGTP 258
Query: 284 QRKIHPVSVLAKGFYGIDGGDVFLSLP 310
+ + V + G YGI G +F P
Sbjct: 259 EGDWVSMGVPSDGSYGIPEGLIF-GFP 284
>gnl|CDD|205390 pfam13209, DUF4017, Protein of unknown function (DUF4017). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 60 amino acids in length.
Length = 60
Score = 31.6 bits (72), Expect = 0.065
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 135 KAIIPPLVKYSPDCILLIVANPVDILTYVAWKL 167
K IIP L+ Y CI+ I+A + +V WKL
Sbjct: 2 KNIIPALLLYIIVCIIAIIAPASEGYNHVGWKL 34
>gnl|CDD|133425 cd05197, GH4_glycoside_hydrolases, Glycoside Hydrases Family 4.
Glycoside hydrolases cleave glycosidic bonds to release
smaller sugars from oligo- or polysaccharides. Some
bacteria simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP-PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by GH4 glycoside hydrolases. Other organisms
(such as archaea and Thermotoga maritima) lack the
PEP-PTS system, but have several enzymes normally
associated with the PEP-PTS operon. GH4 family members
include 6-phospho-beta-glucosidases,
6-phospho-alpha-glucosidases,
alpha-glucosidases/alpha-glucuronidases (only from
Thermotoga), and alpha-galactosidases. They require two
cofactors, NAD+ and a divalent metal (Mn2+, Ni2+, Mg2+),
for activity. Some also require reducing conditions. GH4
glycoside hydrolases are part of the NAD(P)-binding
Rossmann fold superfamily, which includes a wide variety
of protein families including the NAD(P)-binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 425
Score = 34.0 bits (78), Expect = 0.11
Identities = 17/79 (21%), Positives = 27/79 (34%), Gaps = 5/79 (6%)
Query: 244 LESIHKEVVDSAYEVISLKGYTSWAIGYS---AANLARSIIRDQRKIHPVSVLAKG-FYG 299
+E EV E S+ A L R+++ D V+ G
Sbjct: 284 VEKELFEVYKFIKENPSVVELIKRGGRKYSEAAIPLIRALLNDNGARFVVNTRNNGAIAN 343
Query: 300 IDGGDVFLSLPAQLGRGGV 318
ID DV + +P + + G
Sbjct: 344 ID-DDVVVEVPCLVDKNGP 361
>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed.
Length = 215
Score = 32.5 bits (75), Expect = 0.22
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 31 PSPTKRHTKISVIGTGNVGM----AIAQTILTQDFVEELALVDAKADKL 75
P + KI+VI G + + A A ++T++ +EEL A KL
Sbjct: 52 PHGRGKEVKIAVIAKGELALQAKEAGADYVITREELEELGGDKRAAKKL 100
>gnl|CDD|180766 PRK06940, PRK06940, short chain dehydrogenase; Provisional.
Length = 275
Score = 31.9 bits (73), Expect = 0.46
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 9/74 (12%)
Query: 40 ISVIGTGNVGMAIA------QTILTQDFVEELALVDAKADKLRGEMLDLQHAAAFLP-RT 92
+ VIG G +G AIA + +L D+ EE +A A LR D+ + R
Sbjct: 5 VVVIGAGGIGQAIARRVGAGKKVLLADYNEENL--EAAAKTLREAGFDVSTQEVDVSSRE 62
Query: 93 KILASVDYAVTAGS 106
+ A A T G
Sbjct: 63 SVKALAATAQTLGP 76
>gnl|CDD|218628 pfam05541, Spheroidin, Entomopoxvirus spheroidin protein.
Entomopoxviruses (EPVs) are large (300-400 nm)
oval-shaped viruses replicating in the cytoplasm of
their insect host cells. At the end of their replicative
cycle EPVs virions are occluded in a highly expressed
protein called spheroidin. This protein forms large
(5-20 mm long) oval-shaped occlusion bodies (OBs) called
spherules. The infectious cycle of EPVs begins with the
ingestion by the insect host of the spherules, their
dissolution by the alkaline reducing conditions of the
midgut fluid and the release of virions in the midgut
lumen. The infective particles first replicate in midgut
epithelial cells, then pass the gut barrier to colonise
the internal tissues, mainly the fat body cells. Whilst
spheroidin has been demonstrated to be non-essential for
viral replication, it plays an essential role in the
natural biological cycle of the virus in protecting
virions from adverse environmental conditions (e.g. UV
degradation) and thus improving transmission efficacy.
In this respect, spheroidins are functionally similar to
polyhedrins of baculoviruses or cypoviruses.
Length = 943
Score = 31.4 bits (71), Expect = 0.86
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 143 KYSPDCILLIVANPVDILTYVAWKLSGL------PSN-RVIGSGTNLDSSRFRFLLAD 193
KY+P C IV N I ++ ++S + P N R+ G ++D SR+ D
Sbjct: 419 KYTPKCKFYIVVNRPVITIHLYGEISNVCLKPKTPKNLRLWGWILDVDDSRYIKHYDD 476
>gnl|CDD|133433 cd05297, GH4_alpha_glucosidase_galactosidase, Glycoside Hydrolases
Family 4; Alpha-glucosidases and alpha-galactosidases.
Glucosidases cleave glycosidic bonds to release glucose
from oligosaccharides. Alpha-glucosidases and
alpha-galactosidases release alpha-D-glucose and
alpha-D-galactose, respectively, via the hydrolysis of
alpha-glycopyranoside bonds. Some bacteria
simultaneously translocate and phosphorylate
disaccharides via the phosphoenolpyruvate-dependent
phosphotransferase system (PEP-PTS). After
translocation, these phospho-disaccharides may be
hydrolyzed by the GH4 glycoside hydrolases such as the
alpha-glucosidases. Other organsisms (such as archaea
and Thermotoga maritima) lack the PEP-PTS system, but
have several enzymes normally associated with the
PEP-PTS operon. Alpha-glucosidases and
alpha-galactosidases are part of the NAD(P)-binding
Rossmann fold superfamily, which includes a wide variety
of protein families including the NAD(P)-binding domains
of alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and NAD-binding
potassium channel domains, among others.
Length = 423
Score = 30.6 bits (70), Expect = 1.2
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 128 QRNLSLFKAIIPPLVKYSPDCILLIVANPVDILTYVAWKLSGLPSNRVIG 177
R + + I + + PD LL ANP+ LT+ + + + + +G
Sbjct: 119 LRTIPVLLDIARDIEELCPDAWLLNYANPMAELTWALNRYTPI---KTVG 165
>gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate
dehydrogenase. Shikimate dehydrogenase (DH) is an amino
acid DH family member. Shikimate pathway links
metabolism of carbohydrates to de novo biosynthesis of
aromatic amino acids, quinones and folate. It is
essential in plants, bacteria, and fungi but absent in
mammals, thus making enzymes involved in this pathway
ideal targets for broad spectrum antibiotics and
herbicides. Shikimate DH catalyzes the reduction of
3-hydroshikimate to shikimate using the cofactor NADH.
Amino acid DH-like NAD(P)-binding domains are members of
the Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DHs, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 155
Score = 29.5 bits (67), Expect = 1.3
Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 36 RHTKISVIGTGNVGMAIAQTILTQDFVEELALVD---AKADKLRGEMLDLQHAAAFLPRT 92
+ K+ ++G G A+A L + ++ +V+ KA L +L A A+L
Sbjct: 18 KGKKVLILGAGGAARAVAYA-LAELGAAKIVIVNRTLEKAKALAERFGELGIAIAYLDLE 76
Query: 93 KILASVDYAV 102
++LA D +
Sbjct: 77 ELLAEADLII 86
>gnl|CDD|215144 PLN02256, PLN02256, arogenate dehydrogenase.
Length = 304
Score = 29.6 bits (67), Expect = 2.1
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 4 TPSGSSLGPGGLDLTQTFFKPINHAAPPSPTKRHTKISVIGTGNVGMAIAQTILTQ 59
+ SL +D Q F + R KI ++G GN G +A+T + Q
Sbjct: 4 SRRPRSLRVRAIDAAQPF-DYESRLQEELEKSRKLKIGIVGFGNFGQFLAKTFVKQ 58
>gnl|CDD|181018 PRK07530, PRK07530, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 292
Score = 29.6 bits (67), Expect = 2.3
Identities = 30/128 (23%), Positives = 46/128 (35%), Gaps = 34/128 (26%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKL----------------RGEMLDL 82
K+ VIG G +G IA + ++ L D AD+L +G++ +
Sbjct: 6 KVGVIGAGQMGNGIAHVCALAGY--DVLLNDVSADRLEAGLATINGNLARQVAKGKISEE 63
Query: 83 QHAAAFLPRTKILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAIIPPLV 142
AAA +I + D A DL I A + +F + P L
Sbjct: 64 ARAAAL---ARISTATDLEDLADCDLVIEAATEDETVKR----------KIFAQLCPVL- 109
Query: 143 KYSPDCIL 150
P+ IL
Sbjct: 110 --KPEAIL 115
>gnl|CDD|224170 COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism].
Length = 307
Score = 29.5 bits (67), Expect = 2.6
Identities = 31/129 (24%), Positives = 54/129 (41%), Gaps = 36/129 (27%)
Query: 39 KISVIGTGNVGMAIAQTI-----------LTQDFVEE-LALVDAKADKL--RGEMLDLQH 84
K++VIG G +G IA ++ + +E LA ++ +KL +G++ + +
Sbjct: 5 KVAVIGAGVMGAGIAAVFALAGYDVVLKDISPEALERALAYIEKNLEKLVEKGKLTEEEA 64
Query: 85 AAAFLPRTKILASVDYAVTAGSDLCIVTAGARQIAGESRLNLLQRNLSLFKAI---IPPL 141
AA +I + D A +DL ++ A +L L K + + L
Sbjct: 65 DAAL---ARITPTTDLAALKDADL-VIEAV-------------VEDLELKKQVFAELEAL 107
Query: 142 VKYSPDCIL 150
K PD IL
Sbjct: 108 AK--PDAIL 114
>gnl|CDD|224662 COG1748, LYS9, Saccharopine dehydrogenase and related proteins
[Amino acid transport and metabolism].
Length = 389
Score = 29.6 bits (67), Expect = 2.8
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVDAKADKLR 76
KI VIG G VG +A L Q+ E+ + D +K
Sbjct: 3 KILVIGAGGVGSVVAH-KLAQNGDGEVTIADRSKEKCA 39
>gnl|CDD|183780 PRK12831, PRK12831, putative oxidoreductase; Provisional.
Length = 464
Score = 28.8 bits (65), Expect = 4.1
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 32 SPTKRHTKISVIGTGNVGMAIAQTIL 57
+P K K++V+G GNV M A+T L
Sbjct: 276 TPIKVGKKVAVVGGGNVAMDAARTAL 301
>gnl|CDD|185035 PRK15076, PRK15076, alpha-galactosidase; Provisional.
Length = 431
Score = 29.0 bits (66), Expect = 4.3
Identities = 43/183 (23%), Positives = 65/183 (35%), Gaps = 60/183 (32%)
Query: 38 TKISVIGTGNVGMAIAQTILT--------QDFVEELALVDAKADKLRGEMLDLQHAA--- 86
KI+ IG G+ + +L +D E+AL+D ++L + + A
Sbjct: 2 PKITFIGAGSTVFT--KNLLGDILSVPALRDA--EIALMDIDPERLEESEIVARKLAESL 57
Query: 87 -------AFLPRTKILASVDYAVTA----GSDLCIVT-------AGARQ-------IAGE 121
A R + L DY + A G + C VT G RQ I G
Sbjct: 58 GASAKITATTDRREALQGADYVINAIQVGGYEPCTVTDFEIPKKYGLRQTIGDTLGIGGI 117
Query: 122 SRLNLLQRNLSLFKAIIPPLVK-------YSPDCILLIVANPVDILTYVAWKLSGLPSNR 174
R R IP L+ PD +LL NP+ + T W ++ P +
Sbjct: 118 MRA---LRT-------IPVLLDICEDMEEVCPDALLLNYVNPMAMNT---WAMNRYPGIK 164
Query: 175 VIG 177
+G
Sbjct: 165 TVG 167
>gnl|CDD|224995 COG2084, MmsB, 3-hydroxyisobutyrate dehydrogenase and related
beta-hydroxyacid dehydrogenases [Lipid metabolism].
Length = 286
Score = 28.7 bits (65), Expect = 4.6
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 38 TKISVIGTGNVGMAIAQTIL 57
KI+ IG G +G +A +L
Sbjct: 1 MKIAFIGLGIMGSPMAANLL 20
>gnl|CDD|188573 TIGR04058, AcACP_reductase, long-chain fatty acyl-ACP reductase
(aldehyde-forming). This enzyme, found in
cyanobacteria, reduces a long-chain (mainly C16 or C18)
fatty acyl ACP ester to its corresponding fatty
aldehyde, releasing the acyl carrier protein (ACP).
NADPH or NADH is the reductant for this reaction. This
enzyme may be distantly related to the short-chain
dehydrogenase or reductase (SDR) family (pfam00106). The
purpose of this reaction is in the first step of alkane
biosynthesis (GenProp0942) [Central intermediary
metabolism, Other].
Length = 339
Score = 28.5 bits (64), Expect = 5.0
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 12/69 (17%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVEELALVDAKADKL--------RGEMLDLQHAAAFL 89
++V+G TG++G A+ + + + V EL LV ++L RG++L L+ A L
Sbjct: 157 TVAVVGATGDIGSAVCRWLDAKTGVAELLLVARNQERLENLQAELGRGKILSLEEA---L 213
Query: 90 PRTKILASV 98
P I+ V
Sbjct: 214 PEADIVVWV 222
>gnl|CDD|176204 cd08242, MDR_like, Medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
This group contains members identified as related to
zinc-dependent alcohol dehydrogenase and other members
of the MDR family, including threonine dehydrogenase.
The medium chain dehydrogenases/reductase
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group includes
various activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has a
catalytic role, while structural zinc aids in stability.
ADH-like proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and generally have 2 tightly bound zinc atoms per
subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 319
Score = 28.4 bits (64), Expect = 5.1
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 33 PTKRHTKISVIGTGNVGMAIAQT 55
P K++V+G G +G+ IAQ
Sbjct: 152 PITPGDKVAVLGDGKLGLLIAQV 174
>gnl|CDD|169409 PRK08374, PRK08374, homoserine dehydrogenase; Provisional.
Length = 336
Score = 28.6 bits (64), Expect = 5.3
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 39 KISVIGTGNVGMAIAQTILTQ 59
K+S+ G GNVG A+A+ + +
Sbjct: 4 KVSIFGFGNVGRAVAEVLAEK 24
>gnl|CDD|181080 PRK07680, PRK07680, late competence protein ComER; Validated.
Length = 273
Score = 28.4 bits (64), Expect = 5.4
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELAL 67
I IGTGN+G TIL + F+E A+
Sbjct: 2 NIGFIGTGNMG-----TILIEAFLESGAV 25
>gnl|CDD|133432 cd05296, GH4_P_beta_glucosidase, Glycoside Hydrolases Family 4;
Phospho-beta-glucosidase. Some bacteria simultaneously
translocate and phosphorylate disaccharides via the
phosphoenolpyruvate-dependent phosphotransferase system
(PEP-PTS). After translocation, these
phospho-disaccharides may be hydrolyzed by the GH4
glycoside hydrolases such as the
phospho-beta-glucosidases. Other organisms (such as
archaea and Thermotoga maritima ) lack the PEP-PTS
system, but have several enzymes normally associated
with the PEP-PTS operon. The 6-phospho-beta-glucosidase
from Thermotoga maritima hydrolylzes cellobiose
6-phosphate (6P) into glucose-6P and glucose, in an NAD+
and Mn2+ dependent fashion. The Escherichia coli
6-phospho-beta-glucosidase (also called celF) hydrolyzes
a variety of phospho-beta-glucosides including
cellobiose-6P, salicin-6P, arbutin-6P, and
gentobiose-6P. Phospho-beta-glucosidases are part of the
NAD(P)-binding Rossmann fold superfamily, which includes
a wide variety of protein families including the
NAD(P)-binding domains of alcohol dehydrogenases,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate dehydrogenases,
formate/glycerate dehydrogenases, siroheme synthases,
6-phosphogluconate dehydrogenases, aminoacid
dehydrogenases, repressor rex, and NAD-binding potassium
channel domains, among others.
Length = 419
Score = 28.3 bits (64), Expect = 6.4
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 270 GYS--AANLARSIIRDQRKIHPVSVLAKG-FYGIDGGDVFLSLPAQLGRGGV 318
GYS A L +I D+ IH V+V G G+ V + +P + G
Sbjct: 300 GYSEAALALISAIYNDKGDIHVVNVRNNGAIPGLPDDAV-VEVPCVVDADGA 350
>gnl|CDD|226987 COG4640, COG4640, Predicted membrane protein [Function unknown].
Length = 465
Score = 28.3 bits (63), Expect = 6.6
Identities = 15/94 (15%), Positives = 30/94 (31%), Gaps = 13/94 (13%)
Query: 212 DSSVALWSSISVGGVPILSFLEKQQIAYEKETLESIHKEVVDSAYEVIS----------L 261
++S+ +++S G I S + AY+ + I+ + E
Sbjct: 293 NTSITIYASGKAKGKTIKSKETELIKAYDLKYNPQIYLDFDSETIEYYPEKNEGEENQLK 352
Query: 262 KGYTSWAIGYSAANLARSIIRDQRKIHPVSVLAK 295
Y + N Q ++P S L+
Sbjct: 353 NKYIEFKAEAVNTNNMAFN---QSYLYPDSDLSY 383
>gnl|CDD|223100 COG0021, TktA, Transketolase [Carbohydrate transport and
metabolism].
Length = 663
Score = 28.3 bits (64), Expect = 6.6
Identities = 12/40 (30%), Positives = 14/40 (35%), Gaps = 8/40 (20%)
Query: 33 PTKRHTKISVIGTGN--------VGMAIAQTILTQDFVEE 64
P HT TG VGMA+A+ L F
Sbjct: 103 PEYGHTPGVEATTGPLGQGLANAVGMALAEKHLAALFNRP 142
>gnl|CDD|224403 COG1486, CelF, Alpha-galactosidases/6-phospho-beta-glucosidases,
family 4 of glycosyl hydrolases [Carbohydrate transport
and metabolism].
Length = 442
Score = 28.4 bits (64), Expect = 6.8
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 143 KYSPDCILLIVANPVDILTYVAWKLSGLPSNRVIG 177
K P+ +L NP I+T +L P +++G
Sbjct: 135 KVCPNAWMLNYTNPAAIVTEAVRRLY--PKIKIVG 167
>gnl|CDD|226488 COG3980, spsG, Spore coat polysaccharide biosynthesis protein,
predicted glycosyltransferase [Cell envelope biogenesis,
outer membrane].
Length = 318
Score = 28.2 bits (63), Expect = 7.5
Identities = 18/92 (19%), Positives = 34/92 (36%), Gaps = 12/92 (13%)
Query: 110 IVTAGARQIAGESRLNLLQRNLSLFKAIIPPLVKYSPDCILLIVANPVDILTYVAWKLSG 169
I G +I + + R L+L + L K C+ L + I+ + ++
Sbjct: 5 IRCDGGLEIG----MGHVMRTLTLARE----LEKRGFACLFLTKQDIEAII-HKVYEGFK 55
Query: 170 LPSNRVIGSGTNLDSSRFRFLLADHLDVNAQD 201
+ R + +F L+ D +NA D
Sbjct: 56 VLEGR---GNNLIKEEKFDLLIFDSYGLNADD 84
>gnl|CDD|237252 PRK12896, PRK12896, methionine aminopeptidase; Reviewed.
Length = 255
Score = 27.9 bits (63), Expect = 7.9
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 20/58 (34%)
Query: 169 GLPSNRVIGSGTNLDSSRFRFLLADHLDVNAQDVQAYIVGEHGDSSVALWSSISVGGV 226
G+P RVI G D +++ DV AY+ G HGD+ + + +VG V
Sbjct: 84 GIPGPRVIKDG-------------DLVNI---DVSAYLDGYHGDTGI----TFAVGPV 121
>gnl|CDD|133449 cd05191, NAD_bind_amino_acid_DH, NAD(P) binding domain of amino
acid dehydrogenase-like proteins. Amino acid
dehydrogenase(DH)-like NAD(P)-binding domains are
members of the Rossmann fold superfamily and are found
in glutamate, leucine, and phenylalanine DHs (DHs),
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+
as a cofactor. The NAD(P)-binding Rossmann fold
superfamily includes a wide variety of protein families
including NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 86
Score = 26.2 bits (58), Expect = 7.9
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 39 KISVIGTGNVGMAIAQTILTQDFVEELALVD 69
+ V+G G VG IA+ + + +++ L D
Sbjct: 25 TVVVLGAGEVGKGIAKLLA-DEGGKKVVLCD 54
>gnl|CDD|215382 PLN02712, PLN02712, arogenate dehydrogenase.
Length = 667
Score = 28.0 bits (62), Expect = 8.0
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 9 SLGPGGLDLTQTFFKPINHAAPPSPTKRHTKISVIGTGNVGMAIAQTILTQ 59
SL T T +P+ ++ P + T+ KI++IG GN G +A+T+++Q
Sbjct: 26 SLSIKSQSATATDKQPLPNSNPDNTTQ--LKIAIIGFGNYGQFLAKTLISQ 74
>gnl|CDD|201603 pfam01118, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD
binding domain. This Pfam entry contains the following
members: N-acetyl-glutamine semialdehyde dehydrogenase
(AgrC) Aspartate-semialdehyde dehydrogenase.
Length = 121
Score = 26.7 bits (60), Expect = 8.2
Identities = 10/31 (32%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 39 KISVIG-TGNVGMAIAQTILTQDFVEELALV 68
K++++G TG VG + + + +E +ALV
Sbjct: 1 KVAIVGATGYVGQELLRLLAEHPPLELVALV 31
>gnl|CDD|236759 PRK10785, PRK10785, maltodextrin glucosidase; Provisional.
Length = 598
Score = 28.0 bits (63), Expect = 8.3
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 8/46 (17%)
Query: 203 QAYIVGEH-GDSSVALWSSISVGGV-------PILSFLEKQQIAYE 240
+AY++GEH GD+ L + + + P+ +FL IAY
Sbjct: 366 EAYVLGEHFGDARQWLQADVEDAAMNYRGFAFPLRAFLANTDIAYH 411
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.135 0.386
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,864,702
Number of extensions: 1759720
Number of successful extensions: 1699
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1639
Number of HSP's successfully gapped: 83
Length of query: 350
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 252
Effective length of database: 6,590,910
Effective search space: 1660909320
Effective search space used: 1660909320
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.6 bits)